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Type 1 interferon perturbates clonal competition by reshaping human blood development

We studied hematopoietic stem cells, progenitors and immune cells from patients with myeloproliferative neoplasms (MPN) at baseline and following interferon-⍺ (IFN⍺) treatment, the only therapy to deplete mutated stem cells. We deployed single-cell multi-omics methods that distinguish the IFN⍺ effects on mutated stem cells from the admixed wildtype HSCs, with respect to their differentiation, transcriptomes, immunophenotypes, and chromatin accessibility.

Type: Cancer Genomics
Archive: European Genome-phenome Archive (EGA)

5 Datasets

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Dataset ID	Description	Technology	Samples
EGAD50000002891	scRNA-seq (10x Genomics) with genotyping, CITE-seq and Cell Hashing of CD34+ cells (n = 10 patients)	Illumina NovaSeq 6000	13
EGAD50000002892	scRNA-seq (10x Genomics) with CITE-seq and Cell Hashing of immune cells from patients treated with IFNa (n = 7 patients)	Illumina NovaSeq 6000	6
EGAD50000002893	scRNA-seq (10x Genomics) with Cell Hashing of CD34+ cells from patients treated with HU (n = 2 patients)	Illumina NovaSeq 6000	2
EGAD50000002894	snATAC-seq (10x Genomics) with genotyping of CD34+ cells from patients treated with IFNa (n = 3 patients)	Illumina NovaSeq 6000	3
EGAD50000002895	scRNA-seq and ATAC-seq (10x Genomics) with genotyping from patients treated with IFNa (n = 4 patients)	Illumina NovaSeq 6000	4